ENST00000448587.1
TINCR, terminal differentiation-induced ncRNA, acts in somatic differentiation post-development.
Contents
Annotated Information
Transcriptomic Nomeclature
TINCR: tissue differentiation-inducing non-protein coding RNA(HGNC nomenclature)
FLJ90734, LINC00036, "long intergenic non-protein coding RNA 36", NCRNA00036, "non-protein coding RNA 36", "terminal differentiation-induced ncRNA"[1]
Characteristics
A 3.7-kilobase lncRNA, terminal differentiation-induced ncRNA (TINCR), which was located in 19p13.3, controls human epidermal differentiation by a post-transcriptional mechanism. TINCR is required for high messenger RNA abundance of key differentiation genes, many of which are mutated in human skin diseases, including FLG, LOR, ALOXE3, ALOX12B, ABCA12, CASP14 and ELOVL3[1].
Cellular Localization
- cytoplasmic localization[1]
Disease
squamous cell carcinoma, gastric cancer
Function
TINCR acts in somatic differentiation post-development. TINCR may control differentiation mRNA abundance post-transcriptionally, as indicated by TINCR cytoplasmic localization,TINCR binding to differentiation mRNAs and the effect of TINCR on differentiation mRNA stability.[1]
Expression
qRT–PCR was performed using the Maxima SYBR Green qPCR master mix (2×, Fermentas) and the Stratagene Mx3000P (Agilent Technologies) thermocycler. Samples were run in triplicate and normalized to 18S rRNA, GAPDH or ribosomal protein L32. The following primer sequences were used:
| Primers | Forward Sequences | Reverse Sequences |
|---|---|---|
| 18S | 5'-GCAATTATTCCCCATGAACG-3' | 5'-GG CCTCACTAAACCATCCAA-3'[1] |
| L32 | 5'-AGGCATTGACAACAGG GTTC-3' | 5'-GTTGCACATCAGCAGCACTT-3'[1] |
| GAPDH | 5'-GAAGAGAGAGACCCTCACTGCTG-3' | 5'-ACTGTGAGGAGGGGAGATTCAGT-3'[1] |
| FLG | 5'-AAAGAGCTGAAGGAACTTCTGG-3' | 5'-AACCATATCTGGGTCATCTGG-3'[1] |
| KRT1 | 5'-TGAGCTGAATCGTGTGATCC-3' | 5'-CCAGGTCATTCAGCTTGTTC-3'[1] |
| KRT10 | 5'-GCAAATTGAGAGCCTGACTG-3' | 5'-CAGTGGACACATTTCGAAGG-3'[1] |
| LOR | 5'-CTCTGTCTGCGGCTACTCTG-3' | 5'-CACGAGGTCTGAGTGACCTG-3'[1] |
| STAU1 | 5'-ATGGTATCGGCAAGGATGTG-3' | 5'-AGACATTGGTCCGTTTCCTG-3'[1] |
| ALOX12B | 5'-AGACTGCAATTCCGGATCAC-3' | 5'-TGTGGAATGCACTGGAGAAG-3'[1] |
| ALOXE3 | 5'-GAGCAAAAATCTCGCCAGTC-3' | 5'-GGGCTTTGTCTCAGAAATCG-3'[1] |
| ABCA12 | 5'-AACAG TCCAAAGCCATCCAG-3' | 5'-GAGCAGCAGCAATTTCACAG-3'[1] |
| CASP14 | 5'-TTCCGAAGAAGACCTGGATG-3' | 5'-TGG GGTCTCTTTTCATGGTG-3'[1] |
| ELOVL3 | 5'-TTCGAGGAGTATTG GGCAAC-3' | 5'-GAAGATTGCAAGGCAGAAGG-3'[1] |
| TINCR | 5'-TGTGGCCCAAACTCAGGGATACAT-3' | 5'-AGATGACAGTGGCTGGAGTTGTCA-3'[1] |
| ANCR | 5'-GCCACTATGTAGCGGGTTTC-3' | 5'-ACCTGCGCTAAGAACTGAGG-3'[1] |
| LINC1 | 5'-TTCTGGATGCAGCCACACTTCACA-3' | 5'-TGCCAGAGGAATTCTGTTTT-3'[1] |
| UPF1 | 5'-ATATGCCTGCGGTACAAAGG-3' | 5'-AGCTCAATGGCGATCTCATC-3'[1] |
| HIST1H2BG | 5'-ACAAGCGCTCGACCATTA CCT-3' | 5'-TGGTGACAGCCTTGGTACCTTC-3'[1] |
| PGLYRP3 | 5'-GCCAGGCAGTCTCATTTACC-3' | 5'-AGAGAAGCCAGCATCACCTC-3'[1] |
| PRSS27 | 5'-AGTTCATGCCCGTCTCAAAG-3' | 5'-GCCCTTCACCAATTACATCCT-3'[1] |
Labs working on this lncRNA
The Program in Epithelial Biology, Stanford University School of Medicine, Stanford, California 94305, USA.[1]
References
- ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 1.13 1.14 1.15 1.16 1.17 1.18 1.19 1.20 1.21 1.22 1.23 1.24 Kretz M, Siprashvili Z, Chu C, Webster DE, Zehnder A, Qu K, et al. Control of somatic tissue differentiation by the long non-coding RNA TINCR[J]. Nature. 2013,493(7431):231-5.
Basic Information
| Transcript ID |
ENST00000448587.1 |
| Source |
Gencode19 |
| Same with |
lnc-SAFB2-1:1,TINCR |
| Classification |
intergenic |
| Length |
3733 nt |
| Genomic location |
chr19-:5558178..5568045 |
| Exon number |
3 |
| Exons |
5558178..5561410,5562093..5562222,5567676..5568045 |
| Genome context |
|
| Sequence |
000001 GGGCGGGCGG AGCGCGGGCG CGGCGGGGGC GGGCGGCCAG GCTAGTCGGG CGGGTGCGCG GGGCGCTCGG GGCCCGGGGC 000080
000081 CAGAGCTGGA GCCGGAGCCG GGCGGGCGCC ATGGAGGGGC TGCGGCGGGG GCTGTCGCGC TGGAAGCGCT ACCACATCAA 000160 000161 GGTGCACCTG GCGGACGAGG CGCTGCTGCT ACCGCTGACC GTGCGGCCGC GGGACACGCT CAGCGACCTG CGCGCCCAGC 000240 000241 TGGTGGGCCA GGGCGTGAGC TCCTGGAAGC GCGCCTTCTA CTACAACGCG CGGCGGCTGG ACGACCACCA GACGGTGCGC 000320 000321 GACGCGCGCC TGCAGGACGG CTCGGTGCTG CTGCTCGTCA GCGACCCCAG GTAGTCTGGG TTGGAGGAGG CAGAGCCATG 000400 000401 ACCAAGGGGA CCTGGGTACT GGCTGAAGGA ATAGGCTGGG GTAGAGGGCA CTTTTGGAAG GCACTTCTCC TGCCTCCCGG 000480 000481 GAGCCTAGAT CTCACTCCAG GGTCTGGGCT CCCAGGTGGA CCATGAAACC CTGGCCTGAC CAGCTGATGC ACACTGCTTC 000560 000561 AGACACTCCT GCTGGAGCCC CAGTCCCTGA CAAGGACCTA GGACATTTTT GCTCCTGCCC AGCCTATCGG GAGGGAGCCT 000640 000641 TGAGCCTTTC AGCTCTGCTG TGTGACTTTG AGGTTGTTGC TCCCCTCTTG GGGCCCTGGG TGCCCTGTCT TCAGTGGAAA 000720 000721 GCACTGTGCC ACCTTGGAAA GCTCCCATGG GCAGCCAGAG GGCATCGCAA GAAGAGAAGC ACAGAAGGGG CAGGAGAGAC 000800 000801 ACTCAGAGGC ACTTCCGCTC TTGCCCAGGA CATTTTCCCA GCCACACCTT TGCCCAAGCC GTGCCCCCTG CCTGGAGCAC 000880 000881 TTTTCAACCT CTTCTCTGCA GCTCCAATAC ACCTGGGATT GCAGTCTCCT CCAGGAAGTC TTCTCAGATT CCCTCCTTCC 000960 000961 CAGCCAGAGA GCACCTAGCC TTCTTTGGGG CCCCCACAGG CCCTTTGTGC AGTGAACAGC CCTGGCTGGG GGTGCAGCCA 001040 001041 GTCGTGTCCG AACTCTCCAA TGACTAAGCG GGGAGATGCG GACATCCTAG CTCCTTCTCA GGCCTCCAAC TGTGCCCCAT 001120 001121 TTCCACCCCC AAATACCTCC CCAGGAGGCA CCTGTGCCCA CCCCCTGGGC TGTTTCCCCC TTCCCCTTAA ATCCGGATGC 001200 001201 CTCGTCTTGC ATAGGGTCTT GGGGCAGCGG GGAAGGGGTT CTGAAGAACT CTGGCCAAGA GGACGAGGAT CTGGGGGTGG 001280 001281 GGAACTGGGC CTAGCTGTGG GAGGTCATCG CGGGGCATTG CAGGGAGTGC GTTGTGGGAA TTCCGGGTGG AGACCCTCAG 001360 001361 GGCAGTGTGC CGGGCCTCCG TTGCACCTCT GACCTGCAGC CACGTCATCG TTGCGCAGCC CCTGGGGAGG GTCTTTGGGG 001440 001441 AGGGGGTGCC GAGGCTACGC ATGTCCTCGA GGGCCGTGTA CACTCTCCAG GCACCATGGG CGGAGGCGCC AGAGGCTGGG 001520 001521 AAGAAATAAT GTTTTAGTTA AGAGTCCTGT TGGCTGCAGG ACTCAGAGCA TGGACAGGTG GATAGTAAAT CACCACCACG 001600 001601 GGGACAGCCG TGCCCAGACT GTGCGTTTGC TTAGCTCGGG GACAGCACTT GGCCCGGGGT CTCCTGCTCG CCTCCCTTCA 001680 001681 GAGCATCTGC CAAACTTCGG GCATCTACCC TGCAATTCCC GCTTGGCTGA GAGGAGGGGG AGAAGGAGGG GAAGAGAGAG 001760 001761 GAGCCCCACT TCACTCCGGC AGGCAGACCT GCTGGAGCTG CTTTGCAGAA TGACTTGGGT CTTGCTGGCC CCTGGGTGTG 001840 001841 CCTGGAGGGG GGTCTTCCTA TCCCCCTCCA CCTCTCCCCT TGGTGCCTAA CCCAGGACTT TGTCCCCAGA GACCCACTGT 001920 001921 GTGCCCCCTG GAGCTCCTCC TAGAGCAGAG TCTGCTGCTG TCTGTTCTGC AGAGGGTAGC CTGAGGCCCA AGGAGGTTGT 002000 002001 CAGGGACACA CAGCAGGGGG AGGCAGCCCA GATCCCTGCT CATGCGTGGT TTGGGCCTCT GCTAACAGCT GGGCCACATG 002080 002081 CGTGTATCTA GAGCCTGGGT CCCCTCTGTC CTCATTTCCC TGTGCATATT CAGGGACATG CCTCGTCAGG GTTTGGCAAG 002160 002161 AAAATGGGGC ATTTAATAAT CTCCCCAGTT TCATTCCTTG GTCCTTACTC CATGCCAGGA CTTGTGCACA TCTTTTTGGA 002240 002241 GCCCTGTCTC ACTTGATTGA CAGCCGGCCA GGCGCGGTGG CTCACGCCTG TAATCCCAGC ACTTTGGGAG GACGAGGCAG 002320 002321 GCGGATCATG AGGTCAGGAG ATGGAGACCA TCCTGGCTAA CACGGTGAAA CCCCGTCTCT ACTAAAAGTA CAAAAAAAAT 002400 002401 AGCCGGGCCT GGTGGCGGGC GCCTGTAGTC CCAGCTACTT GGTAGGCTGA GGCAGGAGAA TGGCGGGAAC CCGGGAGGCA 002480 002481 GAGGTTGCAG TGAGCTGAGA TCACGCCACT GCACTCCAGC CTGGGCGACA GAGCGAGACT CCGTCTCAAA AAAAAAAAAA 002560 002561 AAAAAGATTG ACAGCCTCAC TGCTCAGGGG CCAGGATAAC AGCCCATTTT ACAGATGGCT TTTGGCTTGC CCAAGGTCAC 002640 002641 CACCCTCTGA ACTGAGGCGT CCCCAACCCA TGCCGGGAGC TGGTGGAGGA AGTGGGGAAG GGTTTCCCGC TTCTCCACTG 002720 002721 GGGGTGGAGG TGGGAGAAAG CATTTTCAGG GTGTTTTGAC ATTTAACAAA CAGTATGCAA ATCACATGCA AATCGCATGC 002800 002801 AAATCACCAC CCATTTCTTA AGCCTCGACA GCGCTGGCAT GTTCTGAAAT AATAATGTTG GACCTGTCCC TTGATGATGA 002880 002881 CCTGGGTCGG GAGGTGCACG GCCTTTTCCT TCCTCCGTCT TCCCTTCCCT TCCCTTCCCT TCCCATCTGT TCTCCCTTCC 002960 002961 TTCGCCCCCT TCCTTTCCTC TCCCTCCCTA TCTTCCATTT TTCTCTTCTT CCTTCACATC ATTTGTCCAA GACCTCCCTG 003040 003041 GCCTGAGATA AACATAAGTT GCAAAAGTGG CTTCCTGCAG CCCATTTTCC AGGTTGGGAA ACTGAGGCAT GGGCCTAAGG 003120 003121 TCCCACAGCC ACACCGAGGA AAGCAGCCCC CACTGAATGT CACCATGCAC CAAAGTGCAT GGTCCTCGTG ACACAAAGAG 003200 003201 GGGAGATGAC AGTGGCTGGA GTTGTCAGAG CTGCTTTGAG GAAGCTCCAG GCCTGATAGG CTTGACAGGG CCAAGGGGAA 003280 003281 CTATTGTGGA ATGTCTTGGC CTTGAATGAC AGGCTGCTGA TTTTGGATCT GGAGAAAGCT CACACTGACT CTTCCTGCTC 003360 003361 CCCCAGTCTG TTTTTCTCCT GCTACTCCAT CCATGTATCC CTGAGTTTGG GCCACAGTCC CTCCACTTGG TTTGCATGTC 003440 003441 CCACCTTCTT TGTTTGGCAA GCTCCTATTC ATCCTTCAAA GCCCTAGCTT CAATACCTGC TACTTCATGC AGCCATTGCT 003520 003521 TATCCTTCAA GGAGAGCCTA CTTCCCTCAA GGACCCTGCT GCTTCCAGTC TCACCTTCTG ACTCACTCGG GATCCACTGA 003600 003601 ACTGGGAGGT CTGTGTCTCC TCCCAGCAGA GTCATCACTA CCTTTGGGGC CGCAGGATCA CCCAGCTTGG AACTAGATAC 003680 003681 AGAAATGCTG TTTTGAGAGT GTACTGAATA AAAGATTACA TGTTTGAAAA CAA |
